HL_5NDG_104

3D structure

PDB id

5NDG (explore in PDB, NAKB, or RNA 3D Hub)

Description

Crystal structure of geneticin (G418) bound to the yeast 80S ribosome

Experimental method

X-RAY DIFFRACTION

Resolution

3.7 Å

Loop

Sequence

GUGAAC

Length

6 nucleotides

Bulged bases

None detected

QA status

Valid loop

Sequence variability

If this chain is mapped to an Rfam alignment, the link below will give its sequence variability.

R3DSVS

Structural variability across Equivalence Class

The link below will give the loop's structural variability across the equivalence class for this chain.

R3DMCS EC

Structural variability across Rfam

If this chain is mapped to an Rfam alignment, the link below will give the loop's structural variability between chains mapped to the same Rfam family.

R3DMCS Rfam

HL_5NDG_104 not in the Motif Atlas

Homologous match to HL_4V88_222

Geometric discrepancy: 0.0851

The information below is about HL_4V88_222

Detailed Annotation

GNRA variation

Broad Annotation

GNRA variation

Motif group

HL_37824.2

Basepair signature

cWW-F-F-F-F

Number of instances in this motif group

360

Unit IDs

5NDG|1|2|G|1778
5NDG|1|2|U|1779
5NDG|1|2|G|1780
5NDG|1|2|A|1781
5NDG|1|2|A|1782
5NDG|1|2|C|1783

Current chains

Chain 2

18S ribosomal RNA

Nearby chains

Chain 1

Large subunit ribosomal RNA; LSU rRNA

Chain Q1

60S ribosomal protein L41-A